DIA-NN Experiments
default_1 F:/GW/raw_data/wGW027.raw
default_2 F:/GW/raw_data/wGW028.raw
default_3 F:/GW/raw_data/wGW029.raw
Plotting the MS1 intensity for all precursors which were associated with one of the defined channels.
Precursor are plotted across the chromatographic gradient.
Plotting the MS1 intensity for all precursors summed over all channels.
Plotting the MS1 intensity for all precursors summed over all channels. Only intersected precursors present in all loaded experiments are shown.
Plotting the MS1 Intensity for intersected precursors summed over all channels. Experiments are normalized to the first experiment.
Number of precursors observed during MS1 scans by charge state
Ms1 fill times along gradient
The averge fill time is shown in magenta for different bins along the retention time gradient. The standard deviation is depicted as area in blue, scans outside this area are shown as single datapoints.
The toal Ion Current (TIC) is shown for bins along the retention time gradient.
Ms2 fill times along gradient
The averge fill time is shown in magenta for different bins along the retention time gradient. The standard deviation is depicted as area in blue, scans outside this area are shown as single datapoints.
The average Ms2 fill times are shown across the gradient for every distinct Ms2 window.
Plotting the MS1 copy numbers for all precursors which were associated with one of the defined channels. The copy numbers are calculated using the signal to noise ratio as described in Derks et al. 2022. By default a resolution of 70,000 is used during preprocessing. It can be changed with the –resolution parameter
Plotting the number of precursors identified at each given confidence level.
Number of precursors found based on quantification startegy. Ms2 precursors are counted based on Precursor.Quantity > 0 and Ms1 precursors are counted based on Ms1.Area > 0.
Number of precursors found based on modification types specified
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Miscleavage rate (percentage) for precursors identified with confidence PEP < 0.01
Plotting frequency of lysine miscleavages in confidently identified precursors.
Plotting frequency of arginine miscleavages in confidently identified precursors.
Number of proteotypic protein IDs found per run. Protein IDs are shown across all channels in an experiment.
The number of precursors identified is shown for every channel together with the number of total and intersected precursors. The number of precursors is based on all precursors found in the report.tsv file which is by default controlled by a run-specific FDR.
The number of precursors identified is shown for every channel together with the number of total and intersected precursors. The number of precursors is based on all precursors with a Channel.Q.Value <= 0.01.
The number of Proteins identified is shown for every channel together with the number of total and intersected proteins. The number of proteins is based on all proteotypic precursors independent of the Protein.Q.Value.
Single-Cell intensity relative to the carrier channel for intersected precursors
Single-Cell intensity relative to the carrier channel for intersected precursors
Single-Cell intensity relative to the carrier channel for intersected precursors
Total number of precursors identified based on different confidence metrics.
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Plotting the Jaccard Index for identified precursors for all channel combinations.
Plotting the Jaccard Index for identified precursors for all channel combinations.
Identified features are reported based on the charge. Precursors quantified in seperate channels are treated as separate precursors..
The number of isotopic peaks identified is shown for features detected in the Dinosaur search.
The number of MS1 scans is shown for all features identified in the Dinosaur search.
Plotting the retention length of identified features at the base.
The frequency of precursor identifications based on the Dinosaur search is plotted across the chromatographic gradient.
The frequency of precursor identifications based on the Dinosaur search is plotted across the mass to charge ratio.
The distribution of integrated intensities is shown for identified features.